Difference between revisions of "Medical Imaging Example Meshes"

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'''Delta = default :''' [https://odu.box.com/s/adx5yrnxrqia908vzcotqpkpl3dpvttv Output Mesh]
 
'''Delta = default :''' [https://odu.box.com/s/adx5yrnxrqia908vzcotqpkpl3dpvttv Output Mesh]
 
<pre>
 
<pre>
docker run -v $(pwd):/data/ crtc_i2m tessellate3d --input ./Medical_Imaging_Data/Head-Neck.mha --output ./Head-Neck,d=2.49023.vtk
+
docker run -v $(pwd):/data/ crtc_i2m tessellate3d --input ./Medical_Imaging_Data/3D/Head-Neck.mha --output ./Head-Neck,d=2.49023.vtk
 
</pre>
 
</pre>
  
 
'''Delta = 1.5 :''' [https://odu.box.com/s/pv0ss8s08oucmsfcbaifyx89isgwb041 Output Mesh]
 
'''Delta = 1.5 :''' [https://odu.box.com/s/pv0ss8s08oucmsfcbaifyx89isgwb041 Output Mesh]
 
<pre>
 
<pre>
docker run -v $(pwd):/data/ crtc_i2m tessellate3d --input ./Medical_Imaging_Data/Head-Neck.mha --delta 1.5 --output ./Head-Neck,d=1.5.vtk
+
docker run -v $(pwd):/data/ crtc_i2m tessellate3d --input ./Medical_Imaging_Data/3D/Head-Neck.mha --delta 1.5 --output ./Head-Neck,d=1.5.vtk
 
</pre>
 
</pre>
  
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'''Uniform :''' [https://odu.box.com/s/5dqgw5pykve4xv2ii30xnkjq5s3maxdl Output Mesh]
 
'''Uniform :''' [https://odu.box.com/s/5dqgw5pykve4xv2ii30xnkjq5s3maxdl Output Mesh]
 
<pre>
 
<pre>
docker run -v $(pwd):/data/ crtc_i2m tessellate3d --input ./Medical_Imaging_Data/Brain-With-Tumor-Case17.nii --output ./Brain-With-Tumor-Case17,d=1.76001.vtk
+
docker run -v $(pwd):/data/ crtc_i2m tessellate3d --input ./Medical_Imaging_Data/3D/Brain-With-Tumor-Case17.nii --output ./Brain-With-Tumor-Case17,d=1.76001.vtk
 
</pre>
 
</pre>
  
 
'''Graded :''' [https://odu.box.com/s/8zlfyepfuzmd8g119eup5n2srxpbqg8s Output Mesh]
 
'''Graded :''' [https://odu.box.com/s/8zlfyepfuzmd8g119eup5n2srxpbqg8s Output Mesh]
 
<pre>
 
<pre>
docker run -v $(pwd):/data/ crtc_i2m tessellate3d --input ./Medical_Imaging_Data/Brain-With-Tumor-Case17.nii --volume-grading --output ./Brain-With-Tumor-Case17,d=1.76001,graded.vtk
+
docker run -v $(pwd):/data/ crtc_i2m tessellate3d --input ./Medical_Imaging_Data/3D/Brain-With-Tumor-Case17.nii --volume-grading --output ./Brain-With-Tumor-Case17,d=1.76001,graded.vtk
 
</pre>
 
</pre>
  
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'''Uniform :''' [https://odu.box.com/s/q42ekuymr0gy0w882ilcngjfg8l95xvx Output Mesh]
 
'''Uniform :''' [https://odu.box.com/s/q42ekuymr0gy0w882ilcngjfg8l95xvx Output Mesh]
 
<pre>
 
<pre>
docker run -v $(pwd):/data/ crtc_i2m tessellate3d --input ./Medical_Imaging_Data/Head-Neck.mha --output ./Knee-Char,d=1.19.vtk
+
docker run -v $(pwd):/data/ crtc_i2m tessellate3d --input ./Medical_Imaging_Data/3D/Head-Neck.mha --output ./Knee-Char,d=1.19.vtk
 
</pre>
 
</pre>
  
 
'''Graded :''' [https://odu.box.com/s/i788xycxrd11wpxneo4wq3x0ekk9yemm Output Mesh]
 
'''Graded :''' [https://odu.box.com/s/i788xycxrd11wpxneo4wq3x0ekk9yemm Output Mesh]
 
<pre>
 
<pre>
docker run -v $(pwd):/data/ crtc_i2m tessellate3d --input ./Medical_Imaging_Data/Head-Neck.mha --volume-grading --output ./Knee-Char,d=1.19,graded.vtk
+
docker run -v $(pwd):/data/ crtc_i2m tessellate3d --input ./Medical_Imaging_Data/3D/Head-Neck.mha --volume-grading --output ./Knee-Char,d=1.19,graded.vtk
 
</pre>
 
</pre>
  
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'''Uniform :''' [https://odu.box.com/s/nfqgcr1j1j6wdnydb9sug8652y9falvc Output Mesh]
 
'''Uniform :''' [https://odu.box.com/s/nfqgcr1j1j6wdnydb9sug8652y9falvc Output Mesh]
 
<pre>
 
<pre>
docker run -v $(pwd):/data/ crtc_i2m tessellate3d --input ./Medical_Imaging_Data/Ircad2.nrrd --delta 2 --output ./Ircad2,d=2.vtk
+
docker run -v $(pwd):/data/ crtc_i2m tessellate3d --input ./Medical_Imaging_Data/3D/Ircad2.nrrd --delta 2 --output ./Ircad2,d=2.vtk
 
</pre>
 
</pre>
  
 
'''Graded  :''' [https://odu.box.com/s/ofnxslfgijzbqbwqqlvcetm783kqv9uo Output Mesh]
 
'''Graded  :''' [https://odu.box.com/s/ofnxslfgijzbqbwqqlvcetm783kqv9uo Output Mesh]
 
<pre>
 
<pre>
docker run -v $(pwd):/data/ crtc_i2m tessellate3d --input ./Medical_Imaging_Data/Ircad2.nrrd --delta 1 --volume-grading --output ./Ircad2,d=1,graded.vtk
+
docker run -v $(pwd):/data/ crtc_i2m tessellate3d --input ./Medical_Imaging_Data/3D/Ircad2.nrrd --delta 1 --volume-grading --output ./Ircad2,d=1,graded.vtk
 
</pre>
 
</pre>

Revision as of 15:26, 2 March 2020

The directory containing the input data is located in the 3D folder of Medical_Imaging_Data.

Head-Neck

  • Input image : Dimensions (255x255x229) with spacing (0.976562x0.976562x1.40002)
  • Delta = default case: 205,416 tetrahedra
  • Delta = 1.5 case: 770,853 tetrahedra

Commands to generate meshes :

Delta = default : Output Mesh

docker run -v $(pwd):/data/ crtc_i2m tessellate3d --input ./Medical_Imaging_Data/3D/Head-Neck.mha --output ./Head-Neck,d=2.49023.vtk

Delta = 1.5 : Output Mesh

docker run -v $(pwd):/data/ crtc_i2m tessellate3d --input ./Medical_Imaging_Data/3D/Head-Neck.mha --delta 1.5 --output ./Head-Neck,d=1.5.vtk

Brain-With-Tumor-Case17

  • Input image : Dimensions (448x512x176) with spacing (0.488281x0.488281x1)
  • Uniform with Delta = default case: 222,540 tetrahedra
  • Graded with Delta = default case: 94,383 tetrahedra

Commands to generate meshes :

Uniform : Output Mesh

docker run -v $(pwd):/data/ crtc_i2m tessellate3d --input ./Medical_Imaging_Data/3D/Brain-With-Tumor-Case17.nii --output ./Brain-With-Tumor-Case17,d=1.76001.vtk

Graded : Output Mesh

docker run -v $(pwd):/data/ crtc_i2m tessellate3d --input ./Medical_Imaging_Data/3D/Brain-With-Tumor-Case17.nii --volume-grading --output ./Brain-With-Tumor-Case17,d=1.76001,graded.vtk

Knee-Char

  • Input image : Dimensions (512x512x119) with spacing (0.27734x0.27734x1)
  • Uniform with Delta = default case: 386,869 tetrahedra
  • Graded with Delta = default case: 274,309 tetrahedra

Commands to generate meshes :

Uniform : Output Mesh

docker run -v $(pwd):/data/ crtc_i2m tessellate3d --input ./Medical_Imaging_Data/3D/Head-Neck.mha --output ./Knee-Char,d=1.19.vtk

Graded : Output Mesh

docker run -v $(pwd):/data/ crtc_i2m tessellate3d --input ./Medical_Imaging_Data/3D/Head-Neck.mha --volume-grading --output ./Knee-Char,d=1.19,graded.vtk

Ircad2

  • Input image : Dimensions (512x512x219) with spacing (0.976562x0.976562x1.40002)
  • Uniform with Delta = 2 case: 5,031,442 tetrahedra
  • Graded with Delta = 1 case: 6,072,751 tetrahedra

Commands to generate meshes :

Uniform : Output Mesh

docker run -v $(pwd):/data/ crtc_i2m tessellate3d --input ./Medical_Imaging_Data/3D/Ircad2.nrrd --delta 2 --output ./Ircad2,d=2.vtk

Graded  : Output Mesh

docker run -v $(pwd):/data/ crtc_i2m tessellate3d --input ./Medical_Imaging_Data/3D/Ircad2.nrrd --delta 1 --volume-grading --output ./Ircad2,d=1,graded.vtk